A5039855536- Single-cell and spatial transcriptomics
- Cell Image Analysis Techniques
- Acute Myeloid Leukemia Research
- 3D Printing in Biomedical Research
- Hematopoietic Stem Cell Transplantation
- Pluripotent Stem Cells Research
- Inflammatory Bowel Disease
- Genomic variations and chromosomal abnormalities
- Gene Regulatory Network Analysis
- Genomics and Chromatin Dynamics
- CRISPR and Genetic Engineering
- Microscopic Colitis
- Cancer Genomics and Diagnostics
- Chronic Lymphocytic Leukemia Research
- Immune Cell Function and Interaction
- T-cell and B-cell Immunology
- Chronic Myeloid Leukemia Treatments
- Gene expression and cancer classification
- Myeloproliferative Neoplasms: Diagnosis and Treatment
- Physiological and biochemical adaptations
- Immune cells in cancer
- Gut microbiota and health
- Zebrafish Biomedical Research Applications
- Cancer-related molecular mechanisms research
- Polyomavirus and related diseases
Zhejiang University
2016-2025
Sir Run Run Shaw Hospital
2025
Zhejiang Medicine (China)
2025
First Hospital of Jilin University
2023-2024
Jilin University
2023-2024
First Bethune Hospital of Jilin University
2024
First Affiliated Hospital Zhejiang University
2021-2023
Shanxi Agricultural University
2020
Xinjiang Medical University
2020
Fifth Affiliated Hospital of Xinjiang Medical University
2020
Abstract Individual cells are basic units of life. Despite extensive efforts to characterize the cellular heterogeneity different organisms, cross-species comparisons landscape dynamics have not been achieved. Here, we applied single-cell RNA sequencing (scRNA-seq) map organism-level cell landscapes at multiple life stages for mice, zebrafish and Drosophila. By integrating comprehensive dataset > 2.6 million single cells, constructed a identified signatures common pathways that...
Human pluripotent stem cells (hPSCs) provide powerful models for studying cellular differentiations and unlimited sources of regenerative medicine. However, a comprehensive single-cell level differentiation roadmap hPSCs has not been achieved. We use high throughput RNA-sequencing (scRNA-seq), based on optimized microfluidic circuits, to profile early lineages in the human embryoid body system. present cellular-state landscape hPSC that covers multiple lineages, including neural, muscle,...
Cell types are the basic building units of multicellular life, with extensive diversities. The evolution cell is a crucial layer comparative biology but thus far not comprehensively studied. We define compendium atlases using single-cell RNA-seq (scRNA-seq) data from seven animal species and construct cross-species cell-type evolutionary hierarchy. present roadmap for origin diversity major categories find that muscle neuron cells conserved types. Furthermore, we identify transcription...
Zebrafish have been found to be a premier model organism in biological and regeneration research. However, the comprehensive cell compositions molecular dynamics during tissue zebrafish remain poorly understood. Here, we utilized Microwell-seq analyze more than 250,000 single cells covering major types constructed systematic landscape. We revealed single-cell for 18 both embryo adult stages. Single-cell mapping of caudal fin unique characteristic blastema population key genetic regulation...
Variation in gene expression is an important feature of mouse embryonic stem cells (ESCs). However, the mechanisms responsible for global variation ESCs are not fully understood. We performed single-cell mRNA-seq analysis and uncovered significant heterogeneity cultured serum. define highly variable clusters with distinct chromatin states show that bivalent genes prone to variation. At same time, we identify ESC-priming pathway initiates exit from naive ESC state. Finally, provide evidence a...
The first cellular differentiation event in mouse development leads to the formation of blastocyst consisting inner cell mass (ICM) and trophectoderm (TE). transcription factor CDX2 is required for proper TE specification, where it promotes expression genes, represses Pou5f1 (OCT4). However its downstream network developing embryo not fully characterized. Here, we performed high-throughput single qPCR analysis Cdx2 null embryos identify CDX2-regulated targets vivo. To genes likely be...
Abstract Background Acute myeloid leukemia (AML) is a fatal hematopoietic malignancy and has prognosis that varies with its genetic complexity. However, there been no appropriate integrative analysis on the hierarchy of different AML subtypes. Methods Using Microwell-seq, high-throughput single-cell mRNA sequencing platform, we analyzed cellular bone marrow samples from 40 patients 3 healthy donors. We also used single-molecule real-time (SMRT) to investigate clonal heterogeneity cells....
Abstract The rapid development of high-throughput single-cell RNA sequencing technology offers a good opportunity to dissect cell heterogeneity animals. A large number organism-wide atlases have been constructed for vertebrates such as Homo sapiens , Macaca fascicularis Mus musculus and Danio rerio . However, an intermediate taxon that links mammals more ancient origin is still lacking. Here, we construct the first Xenopus landscape date, including larval adult organs. Common...
Abstract Observational studies have reported that dysbiosis of gut microbiota may be a contributing factor in the development IBD. However, causal relationship between and IBD remains unclear due to coexistence patients. The aim this study is investigate reverse relationships inflammatory bowel disease (IBD).We aimed explore using two-sample Mendelian randomization (MR) approach. Specifically, genetic variants associated with were selected from International Genetics Consortium (IIBDGC)...
Background and aims Inflammatory bowel disease (IBD), mainly categorized into Crohn’s (CD) ulcerative colitis (UC), is a chronic relapsing gastrointestinal disorder that significantly impairs patients’ quality of life. IBD patients often experience comorbidities such as anxiety depression, the underlying mechanisms treatment strategies remain areas investigation. Methods We conducted Mendelian randomization(MR) analysis utilizing brain image derived phenotypes (IDP) from UK Biobank database...
Abstract Single cell chromatin accessibility profiling and transcriptome sequencing are the most widely used technologies for single-cell genomics. Here, we present Microwell-seq3, a high-throughput facile platform high-sensitivity single-nucleus or full-length profiling. The method combines preindexing strategy penetrable chip-in-a-tube single nucleus loading DNA amplification therefore does not require specialized equipment. We Microwell-seq3 to profile in more than 200,000 nuclei ~50,000...
Background The Oxidative Balance Score (OBS) is commonly used to assess oxidative stress and provides a comprehensive evaluation of dietary lifestyle-related exposures. However, there limited research on the association between OBS colorectal cancer (CRC), its subsites, complications. objective this study was relationship risk CRC, common complications in large prospective cohort study. Methods We included data from 175,808 participants UK Biobank sample repository 2006 2010. evaluated using...
Tumor heterogeneity plays a pivotal role in tumor progression and resistance to clinical treatment. Single-cell RNA sequencing (scRNA-seq) enables us explore within cell population identify rare types, thereby improving our design of targeted therapeutic strategies. Here, we use pan-cancer pan-tissue single-cell transcriptional landscape reveal heterogeneous expression patterns malignant cells, precancerous as well cancer-associated stromal endothelial cells. We introduce deep learning...
Cell trans-differentiation offers a powerful means to manipulate cell identities. By exposing cells combination of small molecules (SMs), can be induced in simple and cost-effective manner. However, comprehensive atlas detailing chemical-induced across multiple fates has yet established. In this study, the underlying mechanisms is investigated constructed an in-depth single-cell process. The time-course trajectory demonstrated for mouse embryonic fibroblasts (MEFs) into lineages including...
Abstract A deeper understanding of genetic regulation and functional mechanisms underlying associations with complex traits diseases is impeded by cellular heterogeneity linkage disequilibrium. To address these limits, we introduce Huatuo, a framework to decode variation gene at cell type single-nucleotide resolutions integrating deep-learning-based variant predictions population-based association analyses. We apply Huatuo generate comprehensive type-specific landscape across human tissues...
Objective Significant differences have been discovered between subtypes of Crohn’s disease (CD) and ulcerative colitis (UC). The role gut microbiota in promoting the onset UC CD is established, but conclusions regarding subtype-specific analyses remain limited. Methods This study aims to explore influence on CD, offering novel insights into pathogenesis treatment CD.Two-sample Mendelian randomization (MR) analysis was employed examine causal relationship composition. Gut data were sourced...
Abstract The Mexican axolotl ( Ambystoma mexicanum ) is a well-established tetrapod model for regeneration and developmental studies. Remarkably, neotenic axolotls may undergo metamorphosis, process that triggers many dramatic changes in diverse organs, accompanied by gradually decline of their capacity lifespan. However, the molecular regulation cellular metamorphosed are still poorly investigated. Here, we develop single-cell sequencing method based on combinatorial hybridization to...